Enterobacteria phage alpha3, complete genome.
type: Entry
definition: Enterobacteria phage alpha3, complete genome.
sequence version: NC_001330.1
sequence date: 2018-08-13
sequence: sequence
division: PHG
label: NC_001330.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA485481
keyword: RefSeq
keyword: gene a
keyword: gene B
keyword: gene C
keyword: gene D
keyword: gene E
keyword: gene F
keyword: gene G
keyword: gene H
keyword: gene J
keyword: gene K
source: Enterobacteria phage alpha3
organism: Enterobacteria phage alpha3
taxonomy: Viruses; ssDNA viruses; Microviridae; Bullavirinae; Alpha3microvirus.
reference: 1
references: 1532908
reference: 2
reference: 3
reference: 4
comment: REVIEWED REFSEQ: This record has been curated by NCBI staff. The\nreference sequence was derived from X60322.\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000353
sequence length: 6087
topology: circular
so has quality: SO_0000988
location: 1..6087
location: region:1-6087:1
RO_0002162: 10849

NC_001330
type: RefSeq
SIO_000068: refseq

PRJNA485481
type: BioProject
SIO_000068: bioproject

1
title: Nucleotide sequence of the genome of the bacteriophage alpha 3: interrelationship of the genome structure and the gene products with those of the phages, phi X174, G4 and phi K
author: Kodaira, K.
author: Nakano, K.
author: Okada, S.
author: Taketo, A.
journal: Biochim. Biophys. Acta
volume: 1130
issue: 3
pages: 277-288
year: 1992
pubmed: 1532908

1532908
type: PubMed
SIO_000068: pubmed

2
title: Complete nucleotide sequence of the Bacteriophage phiK: Interrelationship of the genome structure, the gene products and the host range with those of the phages alpha3, G4 and phiX174
author: Kodaira, K.I.
author: Tadokoro, H.
author: Suzuki, K.
author: Oki, M.
author: Manto, S.
author: Taketo, A.
journal: Unpublished

3
title: Direct Submission
journal: Submitted (01-AUG-2000) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA

4
title: Direct Submission
author: Kodaira, K.I.
journal: Submitted (20-SEP-1991) K.I. Kodaira, Dept of Cell Technology, Chemical and Biochemical Engineering, Faculty of Engineering, Toyama Univ, 3190 Gofuku, Toyama, Toyama 930, JAPAN

position:1:1
position: 1
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6087:1
position: 6087
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-6087:1:source
so part of: sequence
organism: Enterobacteria phage alpha3
mol type: genomic DNA
isolate: wildtype
host: Escherichia coli
clone lib: al3wt

10849
type: Taxonomy
SIO_000068: taxonomy

misc_feature
type: Miscellaneous Feature
subclass of: SO_0000001
RO_0002162: 10849
note: whole genome of bacteriophage alpha3
so part of: sequence
location: 1..6087
location: region:1-6087:1
so has part: feature:1-6087:1:region

urn:…
SIO_000300: 1
SIO_000628: feature:1-6087:1:region

alpha3p01
type: Gene
subclass of: SO_0000704
RO_0002162: 10849
gene: A
locus tag: alpha3p01
so part of: sequence
location: 759..2243
location: region:759-2243:1
so has part: feature:759-2243:1:exon
subclass of: SO_0000010

1260690
type: Gene
SIO_000068: ncbigene

position:759:1
position: 759
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2243:1
position: 2243
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:759-2243:1:exon

alpha3p01
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 10849
gene: A
locus tag: alpha3p01
codon start: 1
transl table: 11
product: replication initiation protein
translation: MATEIFSDVVKSVWSHATAKHAHLRMAVQVDNRSRLLSDLVYQLEKRLSEETHLDDETLAIYESQTALLEDHMALVRKCAAQLDNSNTIDHRTPLDAECVFLFEMICPGVRYGKTLNSLWTKYVVQWPEKLIRQELDMVKPLSFKDEVAKYMEKMQEKTRKNRMTQKVINEMRIAHQKGWFFVFDTLTLADDRLQAFNENPNALRDYFRTVGRAVLRAEGRSVKDSYNDCYRYLCVPEFGGQHGRLHWHVVHMVRTLPLGSHDPNFGRKVRNYRQINSFRGMWPYGFTQPIAVRYQHDAYSRKGWLWPVDKTGKAMQSKPYQAVAWYVTKYVAKQSDQRQKAITERQKKCKNPLMAICLKKEFRVRSSRKLGMELPSMAHLSNKVLLELSRISFDSSPLYQIVKENAKKQLTLNIGALPLHVILDVRPEVRSMLKTIRRLMKKTPEFNWQSSIASMTVTLKNGDISDEARQYIIDAGITPTDLRAKATQTFGGK
SIO_010081: alpha3p01
subclass of: SO_0000673
so part of: alpha3p01
location: 759..2243
location: region:759-2243:1
so has part: feature:759-2243:1:exon

NP_039590.1
type: Protein
SIO_000068: ncbiprotein

P25243
type: GOA
SIO_000068: goa

IPR008683
type: InterPro
SIO_000068: interpro

IPR008684
type: InterPro
SIO_000068: interpro

P25243
type: UniProt
SIO_000068: uniprot

urn:…
SIO_000300: 1
SIO_000628: feature:759-2243:1:exon

alpha3p02
type: Gene
subclass of: SO_0000704
RO_0002162: 10849
gene: B
locus tag: alpha3p02
so part of: sequence
location: 1805..2158
location: region:1805-2158:1
so has part: feature:1805-2158:1:exon
subclass of: SO_0000010

1260691
type: Gene
SIO_000068: ncbigene

position:1805:1
position: 1805
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2158:1
position: 2158
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1805-2158:1:exon

alpha3p02
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 10849
gene: B
locus tag: alpha3p02
note: Protein B is required for the assembly of the basic building block of the Microvirus capsid and is incorporated into the procapsid. Protein B is displaced by the protein J/ssDNA complex during assembly and is therefore not part of the mature virion. Other names: protein B, gpB. Function: morphogenesis.
codon start: 1
transl table: 11
product: internal scaffolding protein
translation: MQESINGNLSEERISGTQQSETRNGAPVNGSSEQQGTSGTEPNQLRFQSSVSDSERERQKAIDLEHRRAAFARHFGCAPGSEKHVENYSSFDEKDTRVQLAEFYRFNDGHFKKWGYF
SIO_010081: alpha3p02
subclass of: SO_0000673
so part of: alpha3p02
location: 1805..2158
location: region:1805-2158:1
so has part: feature:1805-2158:1:exon

NP_039591.1
type: Protein
SIO_000068: ncbiprotein

P31278
type: GOA
SIO_000068: goa

IPR003513
type: InterPro
SIO_000068: interpro

P31278
type: UniProt
SIO_000068: uniprot

urn:…
SIO_000300: 1
SIO_000628: feature:1805-2158:1:exon

alpha3p03
type: Gene
subclass of: SO_0000704
RO_0002162: 10849
gene: K
locus tag: alpha3p03
so part of: sequence
location: 2158..2319
location: region:2158-2319:1
so has part: feature:2158-2319:1:exon
subclass of: SO_0000010

1260692
type: Gene
SIO_000068: ncbigene

position:2319:1
position: 2319
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2158-2319:1:exon

alpha3p03
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 10849
gene: K
locus tag: alpha3p03
codon start: 1
transl table: 11
product: hypothetical protein
translation: MKHVNTLLMQELRLLICELKRLRLSAVSDPDFSQEKIHAELDSLLCKLSRHFD
SIO_010081: alpha3p03
subclass of: SO_0000673
so part of: alpha3p03
location: 2158..2319
location: region:2158-2319:1
so has part: feature:2158-2319:1:exon

NP_039592.1
type: Protein
SIO_000068: ncbiprotein

P31282
type: UniProt
SIO_000068: uniprot

urn:…
SIO_000300: 1
SIO_000628: feature:2158-2319:1:exon

alpha3p04
type: Gene
subclass of: SO_0000704
RO_0002162: 10849
gene: C
locus tag: alpha3p04
so part of: sequence
location: 2270..2476
location: region:2270-2476:1
so has part: feature:2270-2476:1:exon
subclass of: SO_0000010

1260693
type: Gene
SIO_000068: ncbigene

position:2270:1
position: 2270
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2476:1
position: 2476
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2270-2476:1:exon

alpha3p04
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 10849
gene: C
locus tag: alpha3p04
codon start: 1
transl table: 11
product: DNA maturation protein
translation: MLSSTRYYASYRATLTKQLMFLTKADFTNDDEKWLNAFGNLLRQWFQIEDWKGNHKKLLDDLKKRDYL
SIO_010081: alpha3p04
subclass of: SO_0000673
so part of: alpha3p04
location: 2270..2476
location: region:2270-2476:1
so has part: feature:2270-2476:1:exon

NP_039593.1
type: Protein
SIO_000068: ncbiprotein

P31279
type: UniProt
SIO_000068: uniprot

urn:…
SIO_000300: 1
SIO_000628: feature:2270-2476:1:exon

alpha3p05
type: Gene
subclass of: SO_0000704
RO_0002162: 10849
gene: D
locus tag: alpha3p05
so part of: sequence
location: 2503..2955
location: region:2503-2955:1
so has part: feature:2503-2955:1:exon
subclass of: SO_0000010

1260694
type: Gene
SIO_000068: ncbigene

position:2503:1
position: 2503
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2955:1
position: 2955
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2503-2955:1:exon

alpha3p05
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 10849
gene: D
locus tag: alpha3p05
note: 240 molecules of protein D form an external scaffold required for the formation of Microvirus procapsid. Not present in mature particles. other names: protein D, gpD; function: morphogenesis
codon start: 1
transl table: 11
product: external scaffolding protein
translation: MNIVSDVNYATSVAALRMLQASAVLDVTEEDFDFLTGDKIWIATDRNRARRCVEACVYGTLDFVGYPRFPAPVEFIAAVIAYYVHPVNVQTACLVMEGAEFSENIINGVERPVNAAELFAYTLRIKAGFKETVMDAEENARQKLRANGLK
SIO_010081: alpha3p05
subclass of: SO_0000673
so part of: alpha3p05
location: 2503..2955
location: region:2503-2955:1
so has part: feature:2503-2955:1:exon

NP_039594.1
type: Protein
SIO_000068: ncbiprotein

P08765
type: GOA
SIO_000068: goa

IPR004196
type: InterPro
SIO_000068: interpro

P08765
type: UniProt
SIO_000068: uniprot

urn:…
SIO_000300: 1
SIO_000628: feature:2503-2955:1:exon

alpha3p06
type: Gene
subclass of: SO_0000704
RO_0002162: 10849
gene: E
locus tag: alpha3p06
so part of: sequence
location: 2675..2902
location: region:2675-2902:1
so has part: feature:2675-2902:1:exon
subclass of: SO_0000010

1260695
type: Gene
SIO_000068: ncbigene

position:2675:1
position: 2675
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2902:1
position: 2902
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2675-2902:1:exon

alpha3p06
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 10849
gene: E
locus tag: alpha3p06
note: Microvirus cell lysis protein is a membrane protein that inhibits MraY, an enzyme required for murein synthesis, and promotes cell lysis in a manner analogous to cell wall synthesis inhibitors like penicillin. A host factor (slyD) is required for stability of protein E. other names: protein E, gpE; function: phage release by lysis
codon start: 1
transl table: 11
product: cell lysis protein
translation: MERWTLLDILAFLLLLSLLLPSLLIMFIPSMYKQHASLWKARSLAKTLSMASSARLTPLSSSRTPCVLKQDSKKL
SIO_010081: alpha3p06
subclass of: SO_0000673
so part of: alpha3p06
location: 2675..2902
location: region:2675-2902:1
so has part: feature:2675-2902:1:exon

NP_039595.1
type: Protein
SIO_000068: ncbiprotein

P31280
type: GOA
SIO_000068: goa

IPR007605
type: InterPro
SIO_000068: interpro

P31280
type: UniProt
SIO_000068: uniprot

urn:…
SIO_000300: 1
SIO_000628: feature:2675-2902:1:exon

alpha3p07
type: Gene
subclass of: SO_0000704
RO_0002162: 10849
gene: J
locus tag: alpha3p07
so part of: sequence
location: 2957..3031
location: region:2957-3031:1
so has part: feature:2957-3031:1:exon
subclass of: SO_0000010

1260696
type: Gene
SIO_000068: ncbigene

position:2957:1
position: 2957
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3031:1
position: 3031
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2957-3031:1:exon

alpha3p07
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 10849
gene: J
locus tag: alpha3p07
note: Protein J binds to ssDNA Microvirus genomes and is packaged with the DNA into procapsids. During packaging it displaces the internal scaffold protein. other names: core protein, protein J; function: DNA packaging, DNA binding
codon start: 1
transl table: 11
product: DNA packaging protein
translation: MKKARRSPSRRKGARLWYVGGSQF
SIO_010081: alpha3p07
subclass of: SO_0000673
so part of: alpha3p07
location: 2957..3031
location: region:2957-3031:1
so has part: feature:2957-3031:1:exon

NP_039596.1
type: Protein
SIO_000068: ncbiprotein

P69548
type: GOA
SIO_000068: goa

IPR006815
type: InterPro
SIO_000068: interpro

1M06
type: PDB
SIO_000068: pdb

P69548
type: UniProt
SIO_000068: uniprot

urn:…
SIO_000300: 1
SIO_000628: feature:2957-3031:1:exon

alpha3p08
type: Gene
subclass of: SO_0000704
RO_0002162: 10849
gene: F
locus tag: alpha3p08
so part of: sequence
location: 3067..4362
location: region:3067-4362:1
so has part: feature:3067-4362:1:exon
subclass of: SO_0000010

1260697
type: Gene
SIO_000068: ncbigene

position:3067:1
position: 3067
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4362:1
position: 4362
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3067-4362:1:exon

alpha3p08
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 10849
gene: F
locus tag: alpha3p08
note: 60 copies of protein F form the icosahedral capsid of Microviruses. other names: protein F, gpF; function: phage structural protein
codon start: 1
transl table: 11
product: capsid protein
translation: MSNVQTSAEREIVDLSHLAFDCGMLGRLKTVSWTPVIAGDSFELDAVGALRLSPLRRGLAIDSKVDFFTFYIPHRHVYGDQWIQFMRDGVNAQPLPSVTCNRYPDHAGYVGTIVPANNRIPKFLHQSYLNIYNNYFRAPWMPERTEANPSNLNEDDARYRFRCCHLKNIWSAPLPPETKLAEEMGIESNSIDIMGLQAAYAQLHTEQERTYFMQRYRDVISSFGGSTSYDADNRPLLVMHTDFWASGYDVDGTDQSSLGQFSGRVQQTFKHSVPRFFVPEHGVMMTLALIRFPPISPLEHHYLAGKSQLTYTDLAGDPALIGNLPPREISYRDLFRDGRSGIKIKVAESIWYRTHPDYVNFKYHDLHGFPFLDDAPGTSTGDNLQEAILVRHQDYDACFQSQQLLQWNKQARYNVSVYRHMPTVRDSIMTS
SIO_010081: alpha3p08
subclass of: SO_0000673
so part of: alpha3p08
location: 3067..4362
location: region:3067-4362:1
so has part: feature:3067-4362:1:exon

NP_039597.1
type: Protein
SIO_000068: ncbiprotein

P08767
type: GOA
SIO_000068: goa

IPR003514
type: InterPro
SIO_000068: interpro

1RB8
type: PDB
SIO_000068: pdb

P08767
type: UniProt
SIO_000068: uniprot

urn:…
SIO_000300: 1
SIO_000628: feature:3067-4362:1:exon

alpha3p09
type: Gene
subclass of: SO_0000704
RO_0002162: 10849
gene: G
locus tag: alpha3p09
so part of: sequence
location: 4396..4959
location: region:4396-4959:1
so has part: feature:4396-4959:1:exon
subclass of: SO_0000010

1260698
type: Gene
SIO_000068: ncbigene

position:4396:1
position: 4396
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4959:1
position: 4959
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4396-4959:1:exon

alpha3p09
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 10849
gene: G
locus tag: alpha3p09
note: A total of 60 copies of protein G are present at the 12 vertices with 5-fold symmetry of Microvirus capsids. other names: protein G, gpG; function: phage minor structural protein
codon start: 1
transl table: 11
product: major spike protein
translation: MYQNFVTKHDTAIQTSRFSVTGNVIPAAPTGNIPVINGGSITAERAVVNLYANMNVSTSSDGSFIVAMKVDTSPTDPNCVISAGVNLSFAGTSYPIVGIVRFESASEQPTSIAGSEVEHYPIEMSVGSGGVCSARDCATVDIHPRTSGNNVFVGVICSSAKWTSGRVIGTIATTQVIHEYQVLQPLK
SIO_010081: alpha3p09
subclass of: SO_0000673
so part of: alpha3p09
location: 4396..4959
location: region:4396-4959:1
so has part: feature:4396-4959:1:exon

NP_039598.1
type: Protein
SIO_000068: ncbiprotein

P31281
type: GOA
SIO_000068: goa

IPR003515
type: InterPro
SIO_000068: interpro

P31281
type: UniProt
SIO_000068: uniprot

urn:…
SIO_000300: 1
SIO_000628: feature:4396-4959:1:exon

alpha3p10
type: Gene
subclass of: SO_0000704
RO_0002162: 10849
gene: H
locus tag: alpha3p10
so part of: sequence
location: 5095..6087
location: region:5095-6087:1
so has part: feature:5095-6087:1:exon
subclass of: SO_0000010

1260699
type: Gene
SIO_000068: ncbigene

position:5095:1
position: 5095
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5095-6087:1:exon

alpha3p10
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 10849
gene: H
locus tag: alpha3p10
note: One molecule of protein H is located at each of the 12 vertices with 5-fold symmetry. Binds to LPS and is involved in particle adsorption to host cells. Several protein H molecules enter the host cytoplasm with the phage genome. other names: protein H, gpH, DNA pilot protein; function: phage minor structural protein, adsorption, DNA injection
codon start: 1
transl table: 11
product: minor spike protein
translation: MLGAVVGGIASALASGAASKLFGGSQRGVSVMQQGAESAGLTNGGGAISMDNDQGIQSAIQGSNVPPAGQLPESQNSGVMADAGNMLRNAGKSLLDGTIQAGSDKVKQALIDKLIGGNDAKDRGKATRDYLAAAFPELNPWERAGAGASTAGLESSAQNQQKEMLKMQLDNQKDIAKMQMDNNLQIAGIQSATSRQNTKDSVYAQNEMLQYNQRESQARVASILANTDLTTKQATHEIMRMALTRAQETGQHLTNSQIMALEKKVYAEIGKIHQDTQNSRYGSSQVTAAAKDVTNMITDAASGASDWVSQQWNSFFKDGKSNGISLNTRK
SIO_010081: alpha3p10
subclass of: SO_0000673
so part of: alpha3p10
location: 5095..6087
location: region:5095-6087:1
so has part: feature:5095-6087:1:exon

NP_039599.1
type: Protein
SIO_000068: ncbiprotein

P03650
type: GOA
SIO_000068: goa

IPR006777
type: InterPro
SIO_000068: interpro

P03650
type: UniProt
SIO_000068: uniprot

urn:…
SIO_000300: 1
SIO_000628: feature:5095-6087:1:exon